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Uncovering the mechanism for aggregation in repeat expanded RNA reveals a reentrant transition
RNA molecules aggregate under certain conditions. The resulting condensates are implicated in human neurological disorders, and can potentially be designed towards specified bulk properties in vitro. However, the mechanism for aggregation—including how aggregation properties change with sequence and...
Autores principales: | , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Nature Publishing Group UK
2023
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9852226/ https://www.ncbi.nlm.nih.gov/pubmed/36658112 http://dx.doi.org/10.1038/s41467-023-35803-x |
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author | Kimchi, Ofer King, Ella M. Brenner, Michael P. |
author_facet | Kimchi, Ofer King, Ella M. Brenner, Michael P. |
author_sort | Kimchi, Ofer |
collection | PubMed |
description | RNA molecules aggregate under certain conditions. The resulting condensates are implicated in human neurological disorders, and can potentially be designed towards specified bulk properties in vitro. However, the mechanism for aggregation—including how aggregation properties change with sequence and environmental conditions—remains poorly understood. To address this challenge, we introduce an analytical framework based on multimer enumeration. Our approach reveals the driving force for aggregation to be the increased configurational entropy associated with the multiplicity of ways to form bonds in the aggregate. Our model uncovers rich phase behavior, including a sequence-dependent reentrant phase transition, and repeat parity-dependent aggregation. We validate our results by comparison to a complete computational enumeration of the landscape, and to previously published molecular dynamics simulations. Our work unifies and extends published results, both explaining the behavior of CAG-repeat RNA aggregates implicated in Huntington’s disease, and enabling the rational design of programmable RNA condensates. |
format | Online Article Text |
id | pubmed-9852226 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2023 |
publisher | Nature Publishing Group UK |
record_format | MEDLINE/PubMed |
spelling | pubmed-98522262023-01-21 Uncovering the mechanism for aggregation in repeat expanded RNA reveals a reentrant transition Kimchi, Ofer King, Ella M. Brenner, Michael P. Nat Commun Article RNA molecules aggregate under certain conditions. The resulting condensates are implicated in human neurological disorders, and can potentially be designed towards specified bulk properties in vitro. However, the mechanism for aggregation—including how aggregation properties change with sequence and environmental conditions—remains poorly understood. To address this challenge, we introduce an analytical framework based on multimer enumeration. Our approach reveals the driving force for aggregation to be the increased configurational entropy associated with the multiplicity of ways to form bonds in the aggregate. Our model uncovers rich phase behavior, including a sequence-dependent reentrant phase transition, and repeat parity-dependent aggregation. We validate our results by comparison to a complete computational enumeration of the landscape, and to previously published molecular dynamics simulations. Our work unifies and extends published results, both explaining the behavior of CAG-repeat RNA aggregates implicated in Huntington’s disease, and enabling the rational design of programmable RNA condensates. Nature Publishing Group UK 2023-01-19 /pmc/articles/PMC9852226/ /pubmed/36658112 http://dx.doi.org/10.1038/s41467-023-35803-x Text en © The Author(s) 2023 https://creativecommons.org/licenses/by/4.0/Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/ (https://creativecommons.org/licenses/by/4.0/) . |
spellingShingle | Article Kimchi, Ofer King, Ella M. Brenner, Michael P. Uncovering the mechanism for aggregation in repeat expanded RNA reveals a reentrant transition |
title | Uncovering the mechanism for aggregation in repeat expanded RNA reveals a reentrant transition |
title_full | Uncovering the mechanism for aggregation in repeat expanded RNA reveals a reentrant transition |
title_fullStr | Uncovering the mechanism for aggregation in repeat expanded RNA reveals a reentrant transition |
title_full_unstemmed | Uncovering the mechanism for aggregation in repeat expanded RNA reveals a reentrant transition |
title_short | Uncovering the mechanism for aggregation in repeat expanded RNA reveals a reentrant transition |
title_sort | uncovering the mechanism for aggregation in repeat expanded rna reveals a reentrant transition |
topic | Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9852226/ https://www.ncbi.nlm.nih.gov/pubmed/36658112 http://dx.doi.org/10.1038/s41467-023-35803-x |
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